BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0004.0058.p (124 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312342|ref|YP_003776434.1| XRE family transcription regula... 168 1e-43 gi|300310419|ref|YP_003774511.1| Cro/CI family transcription reg... 86 9e-19 gi|300312341|ref|YP_003776433.1| XRE family transcription regula... 81 2e-17 >gi|300312342|ref|YP_003776434.1| XRE family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 124 Score = 168 bits (426), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 79/122 (64%), Positives = 96/122 (78%) Query: 1 MDAPIDNAPSQAALAAKQAIGERLKATRQLSGLNQRDFASRLGTSGAYISCVELGHSMPG 60 M I + + +K AIGERLK+ R L+G+NQRDFA+RL TSGAYISCVELGHSMPG Sbjct: 1 MGKHIGKSDTSGMRISKDAIGERLKSVRLLAGMNQRDFAARLKTSGAYISCVELGHSMPG 60 Query: 61 GRFLRSLHREFDVNINWLLTGLEQELPPRHGFHIKVLIGDYVRASERGKSLVMAVASFLV 120 GRFLRSLH EFDVN+NWLLTG E LPPR+G H++ L+ DY AS+ G+SL+MAVAS+LV Sbjct: 61 GRFLRSLHHEFDVNVNWLLTGQEPSLPPRYGLHVRSLVSDYGGASQAGRSLIMAVASYLV 120 Query: 121 SR 122 + Sbjct: 121 GQ 122 >gi|300310419|ref|YP_003774511.1| Cro/CI family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 152 Score = 85.9 bits (211), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 48/116 (41%), Positives = 70/116 (60%), Gaps = 6/116 (5%) Query: 10 SQAAL-AAKQAIGERLKATRQLSGLNQRDFASRLGTSGAYISCVELGHSMPGGRFLRSLH 68 SQ A+ A+K+A+G+R+K R G +QR FA+ LGT +I +E G MPG R L +H Sbjct: 13 SQPAMNASKKAVGQRIKRARLAIGFSQRKFATVLGTLPNHICQIEQGRCMPGSRLLHGMH 72 Query: 69 REFDVNINWLLTGLEQELPPR---HGFHIKVLIGDYVRASERGKSLVMAVASFLVS 121 +F+++INWLLTG Q P R +++L+ Y RA E GK L+ + A L + Sbjct: 73 VQFNIDINWLLTG--QHQPFRLNSQEMGLRMLLHHYTRADETGKHLLCSAACLLAT 126 >gi|300312341|ref|YP_003776433.1| XRE family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 115 Score = 81.3 bits (199), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 43/104 (41%), Positives = 64/104 (61%), Gaps = 3/104 (2%) Query: 18 QAIGERLKATRQLSGLNQRDFASRLGTSGAYISCVELGHSMPGGRFLRSLHREFDVNINW 77 + IG R+K R +GL+QR+ RL TS +IS +E G +MPGG L LHREF V++NW Sbjct: 4 EEIGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVDLNW 63 Query: 78 LLTGLEQELPP--RHGFHIKVLIGDYVRASERGKSLVMAVASFL 119 LLTG E E P ++ L+ Y R +G+ ++ ++AS++ Sbjct: 64 LLTGEEGE-PGVMETDEEVRQLVDHYCRVDLQGREILRSLASYV 106 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.321 0.136 0.397 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 343,532 Number of extensions: 12644 Number of successful extensions: 44 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 43 Number of HSP's successfully gapped: 3 Length of query: 124 Length of database: 1,619,870 Length adjustment: 74 Effective length of query: 50 Effective length of database: 1,269,480 Effective search space: 63474000 Effective search space used: 63474000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 125 (52.8 bits)